{"action":"closed","issue":{"url":"https://api.github.com/repos/broadinstitute/gatk/issues/2961","repository_url":"https://api.github.com/repos/broadinstitute/gatk","labels_url":"https://api.github.com/repos/broadinstitute/gatk/issues/2961/labels{/name}","comments_url":"https://api.github.com/repos/broadinstitute/gatk/issues/2961/comments","events_url":"https://api.github.com/repos/broadinstitute/gatk/issues/2961/events","html_url":"https://github.com/broadinstitute/gatk/issues/2961","id":233667673,"number":2961,"title":"More M2 normal-normals","user":{"login":"droazen","id":798637,"avatar_url":"https://avatars0.githubusercontent.com/u/798637?v=4","gravatar_id":"","url":"https://api.github.com/users/droazen","html_url":"https://github.com/droazen","followers_url":"https://api.github.com/users/droazen/followers","following_url":"https://api.github.com/users/droazen/following{/other_user}","gists_url":"https://api.github.com/users/droazen/gists{/gist_id}","starred_url":"https://api.github.com/users/droazen/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/droazen/subscriptions","organizations_url":"https://api.github.com/users/droazen/orgs","repos_url":"https://api.github.com/users/droazen/repos","events_url":"https://api.github.com/users/droazen/events{/privacy}","received_events_url":"https://api.github.com/users/droazen/received_events","type":"User","site_admin":false},"labels":[{"id":620200639,"url":"https://api.github.com/repos/broadinstitute/gatk/labels/Mutect","name":"Mutect","color":"0052cc","default":false}],"state":"closed","locked":false,"assignee":{"login":"davidbenjamin","id":8438890,"avatar_url":"https://avatars3.githubusercontent.com/u/8438890?v=4","gravatar_id":"","url":"https://api.github.com/users/davidbenjamin","html_url":"https://github.com/davidbenjamin","followers_url":"https://api.github.com/users/davidbenjamin/followers","following_url":"https://api.github.com/users/davidbenjamin/following{/other_user}","gists_url":"https://api.github.com/users/davidbenjamin/gists{/gist_id}","starred_url":"https://api.github.com/users/davidbenjamin/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/davidbenjamin/subscriptions","organizations_url":"https://api.github.com/users/davidbenjamin/orgs","repos_url":"https://api.github.com/users/davidbenjamin/repos","events_url":"https://api.github.com/users/davidbenjamin/events{/privacy}","received_events_url":"https://api.github.com/users/davidbenjamin/received_events","type":"User","site_admin":false},"assignees":[{"login":"davidbenjamin","id":8438890,"avatar_url":"https://avatars3.githubusercontent.com/u/8438890?v=4","gravatar_id":"","url":"https://api.github.com/users/davidbenjamin","html_url":"https://github.com/davidbenjamin","followers_url":"https://api.github.com/users/davidbenjamin/followers","following_url":"https://api.github.com/users/davidbenjamin/following{/other_user}","gists_url":"https://api.github.com/users/davidbenjamin/gists{/gist_id}","starred_url":"https://api.github.com/users/davidbenjamin/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/davidbenjamin/subscriptions","organizations_url":"https://api.github.com/users/davidbenjamin/orgs","repos_url":"https://api.github.com/users/davidbenjamin/repos","events_url":"https://api.github.com/users/davidbenjamin/events{/privacy}","received_events_url":"https://api.github.com/users/davidbenjamin/received_events","type":"User","site_admin":false}],"milestone":{"url":"https://api.github.com/repos/broadinstitute/gatk/milestones/17","html_url":"https://github.com/broadinstitute/gatk/milestone/17","labels_url":"https://api.github.com/repos/broadinstitute/gatk/milestones/17/labels","id":2574533,"number":17,"title":"Popularize Mutect 2 at the Broad","description":"We want others at the Broad, particularly the Genomics Platform and Cancer Genome Analysis group, to consider Mutect 2 (in GATK 4, of course) the only flavor of Mutect worth using.  To do this, we need to make it faster and we need additional validations.","creator":{"login":"davidbenjamin","id":8438890,"avatar_url":"https://avatars3.githubusercontent.com/u/8438890?v=4","gravatar_id":"","url":"https://api.github.com/users/davidbenjamin","html_url":"https://github.com/davidbenjamin","followers_url":"https://api.github.com/users/davidbenjamin/followers","following_url":"https://api.github.com/users/davidbenjamin/following{/other_user}","gists_url":"https://api.github.com/users/davidbenjamin/gists{/gist_id}","starred_url":"https://api.github.com/users/davidbenjamin/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/davidbenjamin/subscriptions","organizations_url":"https://api.github.com/users/davidbenjamin/orgs","repos_url":"https://api.github.com/users/davidbenjamin/repos","events_url":"https://api.github.com/users/davidbenjamin/events{/privacy}","received_events_url":"https://api.github.com/users/davidbenjamin/received_events","type":"User","site_admin":false},"open_issues":16,"closed_issues":55,"state":"open","created_at":"2017-06-09T19:53:45Z","updated_at":"2017-12-22T18:19:17Z","due_on":"2017-12-31T08:00:00Z","closed_at":null},"comments":1,"created_at":"2017-06-05T18:16:20Z","updated_at":"2017-12-22T18:19:17Z","closed_at":"2017-12-22T18:19:17Z","author_association":"COLLABORATOR","body":"@davidbenjamin commented on [Mon Mar 27 2017](https://github.com/broadinstitute/gatk-protected/issues/958)\n\nWe currently have an ICE exome normal-normal analysis set up i.e. you can `cd` into `/dsde/working/davidben/mutect/validations/normalNormal` and `/Users/home/davidben/cromwell/run_sge.sh normal_normal.wdl normal_normal.json` is all you need to get the analysis.\r\n\r\nLet's set this up for a few other replicate sets, which we can grab from the Palantir wiki.\n\n"}}
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